Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016347
Fusion event
HBV-SGCD integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
980
End
1015
Orient
-
Integrated sequence
TGGAAAGTATGTCAACGAATTGTGGGTCTTTTGGGT
Host Sequence
Chromosome
chr5
Cytoband
q33.3
Reference genome
End
155753938/156326928 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-647 ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-3926 ; hsa-mir-4480 ; hsa-mir-5008-5p ; hsa-mir-6089 ; hsa-mir-4761-5p ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-10b-3p ; hsa-mir-5680 ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-627-3p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-4307 ; hsa-mir-6839-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-629-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-4506 ; hsa-mir-335-3p ; hsa-mir-4477a ; hsa-mir-6759-3p ; hsa-mir-3152-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-320e
Nearest miRNA
hsa-mir-10397/Upstream/1497353; hsa-mir-103a-1/Downstream/4147474;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/597519, chr5-CpG: 45/Downstream/523363
Upstream sequence
GGCTGGACTTTCTCCATCTCCAGGCTGGTGCTTGGGAAGCCCCTAGGCGAGGGCTGCTTTGGCCAGGTAGTACGTGCAGAGGCCTTTGGCATGGACCCTG
Downstream sequence
CCCATTGATAGCTGGAGACAGCCCAGTAGCTGTGAGTCGGTCTGACAAAGCCATATTGAAGTACGGAGTACGGTTTCAAAGCAGTCAGAAAAAGAACGGG
Target sequence
GCAGGGGAGTCGGCCTGTGCTTGACACATGTGTTT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.